TB-Profiler result

Run: SRR12708373
Summary

Run ID: SRR12708373

Sample name:

Date: 02-08-2023 14:41:44

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage2.2.1

Drug-resistance: Sensitive

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage2 East-Asian Beijing RD105 0.97
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.99
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.98
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrB 5515 c.276C>A synonymous_variant 0.14
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765636 p.Val756Gly missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 777185 c.1296G>A synonymous_variant 0.5
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305216 p.Ser762Arg missense_variant 0.18
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407011 c.330C>T synonymous_variant 0.67
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673410 c.-792C>T upstream_gene_variant 0.17
fabG1 1674055 p.Ile206Leu missense_variant 0.2
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169505 p.Gly370Cys missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073785 p.Lys229Asn missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612292 p.Phe275Leu missense_variant 0.15
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
Rv3236c 3613133 c.-17C>T upstream_gene_variant 0.17
clpC1 4038527 p.Glu726Asp missense_variant 0.29
embC 4241288 p.Ile476Leu missense_variant 0.5
embC 4242491 c.2632_2638delGACAGGG frameshift_variant 0.5
embC 4242502 c.2642_2643insCTGTCCC frameshift_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4248917 p.Ile802Phe missense_variant 0.29
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4326257 p.Leu406Ser missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407620 p.Tyr195His missense_variant 0.8
gid 4407927 p.Glu92Asp missense_variant 1.0